[pmiguel]

Yes, release date is March/2011. Does anybody know the new output format? I believe it is called XSV or something like this..

By the way, looks like Life Tech has a free webinar on this very topic soon:

https://learn.appliedbiosystems.com/calendar/

or, specifically,

https://learn.appliedbiosystems.com/courses/view/id/252

Looks like you need a phone and a computer to join. And pre-registration appears to be necessary.

--
Phillip

[pmiguel]

Yes, I have ".xsq" in my notes as the new format name. They were going to be about 30 gigabytes per lane. 12 lanes per "flow chip".

--
Phillip

[drio]

I think the reason for not having a minicluster is the use of FPGAs along with a very powerful machine (like illumina). Anyone has more info about that? I guess we'll find out at AGBT.

[bioits]

Sorry, just remind me. It is called .xsq (eXtensible SeQuence)

[VanessaS]

At the Sequencing at the Tipping Point Conference, back in December, they were saying the new file format would be .xqs (or maybe it was .xsq?)
Its a binary file format, with one file per lane. This is supposed to be why theres no need for a cluster under the machine, its like 60% smaller.

[bioits]

Yes, release date is March/2011. Does anybody know the new output format? I believe it is called XSV or something like this..

I believe it is called HDF, which is a standardized file format (single file replaces csfasta, qual, and spch files).

[Enrico Palazzo]

Yes, release date is March/2011. Does anybody know the new output format? I believe it is called XSV or something like this..

[pmiguel]

There may be 5500xls in the field, if only as test units. That would fulfill the "initial shipments" claim.

--
Phillip

[KevinLam]

Rumours I have heard is march 2010. Not sure what's the hold up.

[colindaven]

Any ideas on real release dates for the 5500XL (solid 4hq) ? Has anyone got one yet ?

"Initial shipments of the 5500xl are planned for December 2010."

Oh that was from the press release at

http://www.lifetechnologies.com/news-gallery/press-releases/2010/life-techologies-lauches-ew-solid-sequecer-to-drive-advaces-i--c.html

[drio]

Is there any documentation about ECC?

[Kingpin31]

ECC module means that you run a 6th primer that gives you direct basespace output. Has nothing to do with any additional hardware.

[pmiguel]

We actually had occasion to repeat image analysis on a completed run of one full slide (~500 million usable beads). (This is not "primary analysis", that occurs after image analysis.) The instrument was otherwise idle. Our solid v4 linux cluster was pegged at 100% load on all 4 nodes for the duration. It took about 1.5 hours/base processed. That is >5 days of wall clock time for a run that completed in about 2 weeks. So that works out to about 40% of the capacity of the cluster had the full 2 weeks to run. Since the solid has 2 flowcells, it might be called upon to do image processing on the fly for both at the same time.

This suggests that the cluster is slightly over provisioned ( by about 25%).

The 5500xl has 2 flowcells like the v4 and will have to process more beads. So no relief there for our console computer.

Perhaps the computation becomes simpler because a sample will be divided across 6 discrete lanes per flow cell? But it seems more likely there has been some break through in the process that has drastically reduced the computational resources required to do image processing.

--
Phillip

[drio]

@Kevin
Is it possible they follow the illumina way? To use a powerful machine for the
image processing and base calling. They don't mention details of the onboard
machine, other than runs windows.

Notice how in the brochure (thanks ECO) saids that the ECC feature requires a module.

[ECO]

Specs for 5500 and 5500xl.